anndata==0.11.4
cellxgene-ontology-guide==1.11.1
click<9
Cython<4
dask[array, dataframe]==2024.12.0
duckdb==1.3.2 # This is a third-party dependency of ibis-framework, pinned to avoid a breaking change in 1.4.0
ibis-framework[duckdb]>=10.3
numpy<3
pandas>2,<3
pyarrow>=19
PyYAML<7
scipy<1.16 # broken in 1.15.0 see https://github.com/chanzuckerberg/single-cell-curation/issues/1165
sparse==0.15.1
semver<4
sqlglot<28.6  # pin to avoid decimal.InvalidOperation bug in 28.7.0+ with Python 3.10
xxhash<4
matplotlib<4
pysam>=0.13.0 # for atac-seq fragment files
pooch>=1.8.0  # for managing downloaded reference files
bioframe==0.8.0
